Atlases

bids_atlas comes with support of a large collection of commonly used publicly available atlases. In the following you can find a respective list, indicating the atlas, the function to download it and its metadata.

AAL

Function

from bids_atlas.datasets import get_AAL
AAL_atlas = get_AAL()

Meta-data

{
    "Name": "Automated Anatomical Labeling Atlas - SPM12 version",
    "Description": "PLEASE ADD",
    "BIDSVersion": "PLEASE ADD",
    "Curators": "PLEASE ADD",
    "HowToAcknowledge": "PLEASE ADD",
    "SourceDatasetsURLs": "PLEASE ADD",
    "License": "PLEASE ADD",
    "Funding": "PLEASE ADD",
    "ReferencesAndLinks": "PLEASE ADD",
    "Species": "PLEASE ADD",
    "DerivedFrom": "PLEASE ADD",
    "LevelType": "PLEASE ADD",
    "SpecialReference": "PLEASE ADD"
}

Destrieux

Function

from bids_atlas.datasets import get_Destrieux
AAL_atlas = get_Destrieux()

Meta-data

{
    "Name": "Destrieux cortical deterministic atlas - 2009 version",
    "Description": "Automatic parcellation of human cortical gyri and sulci using standard anatomical nomenclature",
    "BIDSVersion": "PLEASE ADD",
    "Curators": "PLEASE ADD",
    "HowToAcknowledge": "PLEASE ADD",
    "SourceDatasetsURLs": "PLEASE ADD",
    "License": "PLEASE ADD",
    "Funding": "PLEASE ADD",
    "ReferencesAndLinks": ["https://doi.org/10.1093/cercor/bhg087",
                        "https://doi.org/10.1016/j.neuroimage.2010.06.010"
                        ],
    "Species": "Human",
    "DerivedFrom": "PLEASE ADD",
    "LevelType": "PLEASE ADD",
    "SpecialReference": "PLEASE ADD"
}

Destrieux

deterministic version

Function

from bids_atlas.datasets import get_HarvardOxford
AAL_atlas = get_HarvardOxford(type='dseg', threshold='25')

Meta-data

{
    "Name": "Harvard-Oxford parcellations from FSL - deterministic version",
    "Description": "Harvard-Oxford parcellations from FSL",
    "BIDSVersion": "PLEASE ADD",
    "Curators": "PLEASE ADD",
    "HowToAcknowledge": "PLEASE ADD",
    "SourceDatasetsURLs": "PLEASE ADD",
    "License": "PLEASE ADD",
    "Funding": "PLEASE ADD",
    "ReferencesAndLinks": "PLEASE ADD",
    "Species": "PLEASE ADD",
    "DerivedFrom": "PLEASE ADD",
    "LevelType": "PLEASE ADD",
    "SpecialReference": "PLEASE ADD"
}

probabilistic version

Function

from bids_atlas.datasets import get_HarvardOxford
AAL_atlas = get_HarvardOxford(type='pseg')

Meta-data

{
    "Name": "Harvard-Oxford parcellations from FSL - probabilistic version",
    "Description": "Harvard-Oxford parcellations from FSL",
    "BIDSVersion": "PLEASE ADD",
    "Curators": "PLEASE ADD",
    "HowToAcknowledge": "PLEASE ADD",
    "SourceDatasetsURLs": "PLEASE ADD",
    "License": "PLEASE ADD",
    "Funding": "PLEASE ADD",
    "ReferencesAndLinks": "PLEASE ADD",
    "Species": "PLEASE ADD",
    "DerivedFrom": "PLEASE ADD",
    "LevelType": "PLEASE ADD",
    "SpecialReference": "PLEASE ADD"
}